molstar 3.6.0 → 3.8.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (410) hide show
  1. package/LICENSE +20 -20
  2. package/README.md +202 -202
  3. package/build/viewer/embedded.html +43 -43
  4. package/build/viewer/index.html +106 -106
  5. package/build/viewer/molstar.css +1 -1
  6. package/build/viewer/molstar.js +1 -1
  7. package/build/viewer/molstar.js.LICENSE.txt +0 -15
  8. package/lib/apps/docking-viewer/index.html +36 -36
  9. package/lib/apps/viewer/embedded.html +43 -43
  10. package/lib/apps/viewer/index.html +106 -106
  11. package/lib/cli/chem-comp-dict/create-ions.d.ts +2 -1
  12. package/lib/cli/chem-comp-dict/create-ions.js +3 -2
  13. package/lib/cli/cifschema/index.js +1 -1
  14. package/lib/cli/cifschema/util/cif-dic.js +1 -0
  15. package/lib/commonjs/cli/chem-comp-dict/create-ions.d.ts +2 -1
  16. package/lib/commonjs/cli/chem-comp-dict/create-ions.js +3 -2
  17. package/lib/commonjs/cli/cifschema/index.js +1 -1
  18. package/lib/commonjs/cli/cifschema/util/cif-dic.js +1 -0
  19. package/lib/commonjs/examples/alpha-orbitals/index.js +20 -15
  20. package/lib/commonjs/examples/proteopedia-wrapper/coloring.d.ts +20 -5
  21. package/lib/commonjs/extensions/anvil/behavior.d.ts +1 -1
  22. package/lib/commonjs/extensions/anvil/representation.d.ts +4 -4
  23. package/lib/commonjs/extensions/cellpack/representation.d.ts +1 -1
  24. package/lib/commonjs/extensions/dnatco/confal-pyramids/representation.d.ts +3 -3
  25. package/lib/commonjs/extensions/rcsb/assembly-symmetry/behavior.d.ts +1 -1
  26. package/lib/commonjs/extensions/rcsb/assembly-symmetry/representation.d.ts +1 -1
  27. package/lib/commonjs/extensions/rcsb/graphql/types.d.ts +284 -0
  28. package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts +5 -5
  29. package/lib/commonjs/mol-canvas3d/canvas3d.d.ts +2 -2
  30. package/lib/commonjs/mol-canvas3d/helper/camera-helper.d.ts +1 -1
  31. package/lib/commonjs/mol-canvas3d/helper/handle-helper.d.ts +1 -1
  32. package/lib/commonjs/mol-canvas3d/helper/helper.d.ts +2 -2
  33. package/lib/commonjs/mol-canvas3d/passes/draw.d.ts +0 -2
  34. package/lib/commonjs/mol-canvas3d/passes/draw.js +35 -70
  35. package/lib/commonjs/mol-canvas3d/passes/image.d.ts +1 -1
  36. package/lib/commonjs/mol-canvas3d/passes/pick.d.ts +1 -1
  37. package/lib/commonjs/mol-canvas3d/passes/pick.js +1 -1
  38. package/lib/commonjs/mol-canvas3d/passes/postprocessing.d.ts +1 -0
  39. package/lib/commonjs/mol-canvas3d/passes/postprocessing.js +16 -11
  40. package/lib/commonjs/mol-geo/geometry/color-data.d.ts +7 -10
  41. package/lib/commonjs/mol-geo/geometry/color-data.js +7 -4
  42. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.d.ts +2 -2
  43. package/lib/commonjs/mol-geo/geometry/cylinders/cylinders.js +3 -2
  44. package/lib/commonjs/mol-geo/geometry/lines/lines.d.ts +1 -0
  45. package/lib/commonjs/mol-geo/geometry/mesh/mesh.d.ts +1 -1
  46. package/lib/commonjs/mol-geo/geometry/mesh/mesh.js +3 -2
  47. package/lib/commonjs/mol-geo/geometry/points/points.d.ts +1 -1
  48. package/lib/commonjs/mol-geo/geometry/spheres/spheres.d.ts +1 -1
  49. package/lib/commonjs/mol-geo/geometry/spheres/spheres.js +3 -2
  50. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +1 -1
  51. package/lib/commonjs/mol-geo/geometry/texture-mesh/texture-mesh.js +15 -4
  52. package/lib/commonjs/mol-geo/geometry/transparency-data.d.ts +1 -1
  53. package/lib/commonjs/mol-geo/geometry/transparency-data.js +3 -1
  54. package/lib/commonjs/mol-gl/renderable/cylinders.d.ts +2 -1
  55. package/lib/commonjs/mol-gl/renderable/cylinders.js +2 -2
  56. package/lib/commonjs/mol-gl/renderable/mesh.d.ts +2 -1
  57. package/lib/commonjs/mol-gl/renderable/mesh.js +2 -2
  58. package/lib/commonjs/mol-gl/renderable/schema.d.ts +2 -2
  59. package/lib/commonjs/mol-gl/renderable/schema.js +2 -2
  60. package/lib/commonjs/mol-gl/renderable/spheres.d.ts +2 -1
  61. package/lib/commonjs/mol-gl/renderable/spheres.js +2 -2
  62. package/lib/commonjs/mol-gl/renderable/texture-mesh.d.ts +2 -1
  63. package/lib/commonjs/mol-gl/renderable/texture-mesh.js +2 -2
  64. package/lib/commonjs/mol-gl/renderer.d.ts +5 -5
  65. package/lib/commonjs/mol-gl/renderer.js +114 -64
  66. package/lib/commonjs/mol-gl/scene.d.ts +1 -0
  67. package/lib/commonjs/mol-gl/scene.js +26 -1
  68. package/lib/commonjs/mol-gl/shader/chunks/apply-interior-color.glsl.d.ts +1 -1
  69. package/lib/commonjs/mol-gl/shader/chunks/apply-interior-color.glsl.js +1 -1
  70. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.d.ts +1 -1
  71. package/lib/commonjs/mol-gl/shader/chunks/assign-material-color.glsl.js +1 -1
  72. package/lib/commonjs/mol-gl/shader/chunks/check-picking-alpha.glsl.d.ts +1 -1
  73. package/lib/commonjs/mol-gl/shader/chunks/check-picking-alpha.glsl.js +1 -1
  74. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.d.ts +1 -1
  75. package/lib/commonjs/mol-gl/shader/chunks/color-vert-params.glsl.js +1 -1
  76. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.d.ts +1 -1
  77. package/lib/commonjs/mol-gl/shader/chunks/common-frag-params.glsl.js +1 -1
  78. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.d.ts +1 -1
  79. package/lib/commonjs/mol-gl/shader/chunks/common.glsl.js +1 -1
  80. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.d.ts +1 -1
  81. package/lib/commonjs/mol-gl/shader/chunks/wboit-write.glsl.js +1 -1
  82. package/lib/commonjs/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  83. package/lib/commonjs/mol-gl/shader/direct-volume.frag.js +1 -1
  84. package/lib/commonjs/mol-gl/shader/image.frag.d.ts +1 -1
  85. package/lib/commonjs/mol-gl/shader/image.frag.js +1 -1
  86. package/lib/commonjs/mol-gl/shader/outlines.frag.d.ts +3 -2
  87. package/lib/commonjs/mol-gl/shader/outlines.frag.js +3 -2
  88. package/lib/commonjs/mol-gl/shader/postprocessing.frag.d.ts +1 -1
  89. package/lib/commonjs/mol-gl/shader/postprocessing.frag.js +1 -1
  90. package/lib/commonjs/mol-gl/shader/ssao.frag.d.ts +2 -2
  91. package/lib/commonjs/mol-gl/shader/ssao.frag.js +2 -2
  92. package/lib/commonjs/mol-gl/webgl/render-target.d.ts +3 -1
  93. package/lib/commonjs/mol-gl/webgl/render-target.js +3 -1
  94. package/lib/commonjs/mol-gl/webgl/renderbuffer.d.ts +2 -1
  95. package/lib/commonjs/mol-gl/webgl/renderbuffer.js +8 -1
  96. package/lib/commonjs/mol-gl/webgl/state.d.ts +7 -1
  97. package/lib/commonjs/mol-gl/webgl/state.js +28 -1
  98. package/lib/commonjs/mol-gl/webgl/texture.js +3 -0
  99. package/lib/commonjs/mol-io/reader/cif/schema/bird.d.ts +1 -1
  100. package/lib/commonjs/mol-io/reader/cif/schema/bird.js +1 -1
  101. package/lib/commonjs/mol-io/reader/cif/schema/ccd.d.ts +1 -1
  102. package/lib/commonjs/mol-io/reader/cif/schema/ccd.js +1 -1
  103. package/lib/commonjs/mol-io/reader/cif/schema/cif-core.d.ts +1 -1
  104. package/lib/commonjs/mol-io/reader/cif/schema/cif-core.js +1 -1
  105. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.d.ts +3 -4
  106. package/lib/commonjs/mol-io/reader/cif/schema/mmcif.js +2 -3
  107. package/lib/commonjs/mol-io/reader/dx/parser.js +1 -1
  108. package/lib/commonjs/mol-io/writer/ligand-encoder.d.ts +4 -2
  109. package/lib/commonjs/mol-io/writer/ligand-encoder.js +9 -4
  110. package/lib/commonjs/mol-io/writer/mol/encoder.js +16 -4
  111. package/lib/commonjs/mol-io/writer/mol2/encoder.js +17 -4
  112. package/lib/commonjs/mol-math/geometry/lookup3d/grid.d.ts +1 -1
  113. package/lib/commonjs/mol-math/geometry/lookup3d/grid.js +3 -3
  114. package/lib/commonjs/mol-model/structure/model/properties/seconday-structure.d.ts +4 -2
  115. package/lib/commonjs/mol-model/structure/model/properties/seconday-structure.js +2 -1
  116. package/lib/commonjs/mol-model/structure/model/types/ions.d.ts +2 -2
  117. package/lib/commonjs/mol-model/structure/model/types/ions.js +2 -2
  118. package/lib/commonjs/mol-model/structure/model/types/saccharides.js +1 -1
  119. package/lib/commonjs/mol-model/structure/model/types.d.ts +1 -1
  120. package/lib/commonjs/mol-model/structure/model/types.js +43 -41
  121. package/lib/commonjs/mol-model-formats/shape/ply.d.ts +2 -2
  122. package/lib/commonjs/mol-model-formats/structure/common/property.js +2 -0
  123. package/lib/commonjs/mol-model-formats/structure/property/secondary-structure.d.ts +1 -1
  124. package/lib/commonjs/mol-model-formats/structure/property/secondary-structure.js +2 -2
  125. package/lib/commonjs/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts +1 -1
  126. package/lib/commonjs/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts +1 -1
  127. package/lib/commonjs/mol-model-props/computed/representations/interactions.d.ts +3 -3
  128. package/lib/commonjs/mol-model-props/integrative/cross-link-restraint/representation.d.ts +4 -4
  129. package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +3 -2
  130. package/lib/commonjs/mol-plugin/commands.d.ts +1 -1
  131. package/lib/commonjs/mol-plugin/util/viewport-screenshot.d.ts +3 -3
  132. package/lib/commonjs/mol-plugin-state/helpers/root-structure.js +3 -1
  133. package/lib/commonjs/mol-plugin-state/transforms/representation.d.ts +6 -6
  134. package/lib/commonjs/mol-plugin-ui/base.d.ts +3 -1
  135. package/lib/commonjs/mol-plugin-ui/controls/color.d.ts +1 -1
  136. package/lib/commonjs/mol-plugin-ui/controls/common.d.ts +2 -0
  137. package/lib/commonjs/mol-plugin-ui/hooks/use-behavior.d.ts +1 -1
  138. package/lib/commonjs/mol-plugin-ui/hooks/use-behavior.js +21 -7
  139. package/lib/commonjs/mol-plugin-ui/plugin.d.ts +2 -0
  140. package/lib/commonjs/mol-plugin-ui/plugin.js +2 -2
  141. package/lib/commonjs/mol-plugin-ui/spec.d.ts +1 -0
  142. package/lib/commonjs/mol-plugin-ui/state/common.js +6 -7
  143. package/lib/commonjs/mol-plugin-ui/task.d.ts +2 -21
  144. package/lib/commonjs/mol-plugin-ui/task.js +39 -43
  145. package/lib/commonjs/mol-plugin-ui/viewport/help.d.ts +4 -1
  146. package/lib/commonjs/mol-repr/shape/loci/angle.d.ts +1 -1
  147. package/lib/commonjs/mol-repr/shape/loci/dihedral.d.ts +1 -1
  148. package/lib/commonjs/mol-repr/shape/loci/orientation.d.ts +1 -1
  149. package/lib/commonjs/mol-repr/shape/loci/plane.d.ts +1 -1
  150. package/lib/commonjs/mol-repr/shape/model/unitcell.d.ts +1 -1
  151. package/lib/commonjs/mol-repr/structure/complex-visual.d.ts +3 -3
  152. package/lib/commonjs/mol-repr/structure/params.d.ts +4 -4
  153. package/lib/commonjs/mol-repr/structure/registry.d.ts +10 -10
  154. package/lib/commonjs/mol-repr/structure/representation/backbone.d.ts +3 -3
  155. package/lib/commonjs/mol-repr/structure/representation/ball-and-stick.d.ts +3 -3
  156. package/lib/commonjs/mol-repr/structure/representation/carbohydrate.d.ts +3 -3
  157. package/lib/commonjs/mol-repr/structure/representation/cartoon.d.ts +3 -3
  158. package/lib/commonjs/mol-repr/structure/representation/ellipsoid.d.ts +3 -3
  159. package/lib/commonjs/mol-repr/structure/representation/gaussian-surface.d.ts +3 -3
  160. package/lib/commonjs/mol-repr/structure/representation/molecular-surface.d.ts +3 -3
  161. package/lib/commonjs/mol-repr/structure/representation/orientation.d.ts +3 -3
  162. package/lib/commonjs/mol-repr/structure/representation/putty.d.ts +3 -3
  163. package/lib/commonjs/mol-repr/structure/representation/spacefill.d.ts +3 -3
  164. package/lib/commonjs/mol-repr/structure/units-visual.d.ts +4 -4
  165. package/lib/commonjs/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +2 -2
  166. package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +2 -2
  167. package/lib/commonjs/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +1 -1
  168. package/lib/commonjs/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +1 -1
  169. package/lib/commonjs/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +1 -1
  170. package/lib/commonjs/mol-repr/structure/visual/element-sphere.d.ts +2 -2
  171. package/lib/commonjs/mol-repr/structure/visual/ellipsoid-mesh.d.ts +1 -1
  172. package/lib/commonjs/mol-repr/structure/visual/gaussian-surface-mesh.d.ts +4 -4
  173. package/lib/commonjs/mol-repr/structure/visual/molecular-surface-mesh.d.ts +1 -1
  174. package/lib/commonjs/mol-repr/structure/visual/nucleotide-block-mesh.d.ts +1 -1
  175. package/lib/commonjs/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts +1 -1
  176. package/lib/commonjs/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts +1 -1
  177. package/lib/commonjs/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts +2 -2
  178. package/lib/commonjs/mol-repr/structure/visual/polymer-backbone-sphere.d.ts +2 -2
  179. package/lib/commonjs/mol-repr/structure/visual/polymer-direction-wedge.d.ts +1 -1
  180. package/lib/commonjs/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +1 -1
  181. package/lib/commonjs/mol-repr/structure/visual/polymer-trace-mesh.d.ts +1 -1
  182. package/lib/commonjs/mol-repr/structure/visual/polymer-tube-mesh.d.ts +1 -1
  183. package/lib/commonjs/mol-repr/util.d.ts +1 -1
  184. package/lib/commonjs/mol-repr/util.js +1 -1
  185. package/lib/commonjs/mol-repr/volume/isosurface.d.ts +5 -5
  186. package/lib/commonjs/mol-repr/volume/registry.d.ts +1 -1
  187. package/lib/commonjs/mol-repr/volume/slice.js +1 -1
  188. package/lib/commonjs/mol-script/language/builder.d.ts +0 -1
  189. package/lib/commonjs/mol-theme/color/volume-value.d.ts +3 -2
  190. package/lib/commonjs/mol-theme/color/volume-value.js +1 -3
  191. package/lib/commonjs/mol-theme/color.d.ts +55 -39
  192. package/lib/commonjs/mol-theme/color.js +1 -1
  193. package/lib/commonjs/mol-theme/theme.d.ts +8 -7
  194. package/lib/commonjs/mol-theme/theme.js +1 -1
  195. package/lib/commonjs/servers/model/server/query.js +1 -3
  196. package/lib/commonjs/servers/model/version.d.ts +1 -1
  197. package/lib/commonjs/servers/model/version.js +1 -1
  198. package/lib/examples/alpha-orbitals/index.html +61 -61
  199. package/lib/examples/alpha-orbitals/index.js +20 -15
  200. package/lib/examples/basic-wrapper/index.html +137 -137
  201. package/lib/examples/lighting/index.html +88 -88
  202. package/lib/examples/proteopedia-wrapper/coloring.d.ts +20 -5
  203. package/lib/examples/proteopedia-wrapper/index.html +236 -236
  204. package/lib/extensions/anvil/behavior.d.ts +1 -1
  205. package/lib/extensions/anvil/representation.d.ts +4 -4
  206. package/lib/extensions/cellpack/representation.d.ts +1 -1
  207. package/lib/extensions/dnatco/confal-pyramids/representation.d.ts +3 -3
  208. package/lib/extensions/rcsb/assembly-symmetry/behavior.d.ts +1 -1
  209. package/lib/extensions/rcsb/assembly-symmetry/representation.d.ts +1 -1
  210. package/lib/extensions/rcsb/graphql/types.d.ts +284 -0
  211. package/lib/extensions/rcsb/validation-report/representation.d.ts +5 -5
  212. package/lib/mol-canvas3d/canvas3d.d.ts +2 -2
  213. package/lib/mol-canvas3d/helper/camera-helper.d.ts +1 -1
  214. package/lib/mol-canvas3d/helper/handle-helper.d.ts +1 -1
  215. package/lib/mol-canvas3d/helper/helper.d.ts +2 -2
  216. package/lib/mol-canvas3d/passes/draw.d.ts +0 -2
  217. package/lib/mol-canvas3d/passes/draw.js +32 -67
  218. package/lib/mol-canvas3d/passes/image.d.ts +1 -1
  219. package/lib/mol-canvas3d/passes/pick.d.ts +1 -1
  220. package/lib/mol-canvas3d/passes/pick.js +1 -1
  221. package/lib/mol-canvas3d/passes/postprocessing.d.ts +1 -0
  222. package/lib/mol-canvas3d/passes/postprocessing.js +16 -11
  223. package/lib/mol-geo/geometry/color-data.d.ts +7 -10
  224. package/lib/mol-geo/geometry/color-data.js +7 -4
  225. package/lib/mol-geo/geometry/cylinders/cylinders.d.ts +2 -2
  226. package/lib/mol-geo/geometry/cylinders/cylinders.js +3 -2
  227. package/lib/mol-geo/geometry/lines/lines.d.ts +1 -0
  228. package/lib/mol-geo/geometry/mesh/mesh.d.ts +1 -1
  229. package/lib/mol-geo/geometry/mesh/mesh.js +3 -2
  230. package/lib/mol-geo/geometry/points/points.d.ts +1 -1
  231. package/lib/mol-geo/geometry/spheres/spheres.d.ts +1 -1
  232. package/lib/mol-geo/geometry/spheres/spheres.js +3 -2
  233. package/lib/mol-geo/geometry/texture-mesh/texture-mesh.d.ts +1 -1
  234. package/lib/mol-geo/geometry/texture-mesh/texture-mesh.js +15 -4
  235. package/lib/mol-geo/geometry/transparency-data.d.ts +1 -1
  236. package/lib/mol-geo/geometry/transparency-data.js +3 -1
  237. package/lib/mol-gl/renderable/cylinders.d.ts +2 -1
  238. package/lib/mol-gl/renderable/cylinders.js +2 -2
  239. package/lib/mol-gl/renderable/mesh.d.ts +2 -1
  240. package/lib/mol-gl/renderable/mesh.js +2 -2
  241. package/lib/mol-gl/renderable/schema.d.ts +2 -2
  242. package/lib/mol-gl/renderable/schema.js +2 -2
  243. package/lib/mol-gl/renderable/spheres.d.ts +2 -1
  244. package/lib/mol-gl/renderable/spheres.js +2 -2
  245. package/lib/mol-gl/renderable/texture-mesh.d.ts +2 -1
  246. package/lib/mol-gl/renderable/texture-mesh.js +2 -2
  247. package/lib/mol-gl/renderer.d.ts +5 -5
  248. package/lib/mol-gl/renderer.js +114 -64
  249. package/lib/mol-gl/scene.d.ts +1 -0
  250. package/lib/mol-gl/scene.js +26 -1
  251. package/lib/mol-gl/shader/chunks/apply-interior-color.glsl.d.ts +1 -1
  252. package/lib/mol-gl/shader/chunks/apply-interior-color.glsl.js +1 -1
  253. package/lib/mol-gl/shader/chunks/assign-material-color.glsl.d.ts +1 -1
  254. package/lib/mol-gl/shader/chunks/assign-material-color.glsl.js +1 -1
  255. package/lib/mol-gl/shader/chunks/check-picking-alpha.glsl.d.ts +1 -1
  256. package/lib/mol-gl/shader/chunks/check-picking-alpha.glsl.js +1 -1
  257. package/lib/mol-gl/shader/chunks/color-vert-params.glsl.d.ts +1 -1
  258. package/lib/mol-gl/shader/chunks/color-vert-params.glsl.js +1 -1
  259. package/lib/mol-gl/shader/chunks/common-frag-params.glsl.d.ts +1 -1
  260. package/lib/mol-gl/shader/chunks/common-frag-params.glsl.js +1 -1
  261. package/lib/mol-gl/shader/chunks/common.glsl.d.ts +1 -1
  262. package/lib/mol-gl/shader/chunks/common.glsl.js +1 -1
  263. package/lib/mol-gl/shader/chunks/wboit-write.glsl.d.ts +1 -1
  264. package/lib/mol-gl/shader/chunks/wboit-write.glsl.js +1 -1
  265. package/lib/mol-gl/shader/direct-volume.frag.d.ts +1 -1
  266. package/lib/mol-gl/shader/direct-volume.frag.js +1 -1
  267. package/lib/mol-gl/shader/image.frag.d.ts +1 -1
  268. package/lib/mol-gl/shader/image.frag.js +1 -1
  269. package/lib/mol-gl/shader/outlines.frag.d.ts +3 -2
  270. package/lib/mol-gl/shader/outlines.frag.js +3 -2
  271. package/lib/mol-gl/shader/postprocessing.frag.d.ts +1 -1
  272. package/lib/mol-gl/shader/postprocessing.frag.js +1 -1
  273. package/lib/mol-gl/shader/ssao.frag.d.ts +2 -2
  274. package/lib/mol-gl/shader/ssao.frag.js +2 -2
  275. package/lib/mol-gl/webgl/render-target.d.ts +3 -1
  276. package/lib/mol-gl/webgl/render-target.js +3 -1
  277. package/lib/mol-gl/webgl/renderbuffer.d.ts +2 -1
  278. package/lib/mol-gl/webgl/renderbuffer.js +8 -1
  279. package/lib/mol-gl/webgl/state.d.ts +7 -1
  280. package/lib/mol-gl/webgl/state.js +28 -1
  281. package/lib/mol-gl/webgl/texture.js +3 -0
  282. package/lib/mol-io/reader/cif/schema/bird.d.ts +1 -1
  283. package/lib/mol-io/reader/cif/schema/bird.js +1 -1
  284. package/lib/mol-io/reader/cif/schema/ccd.d.ts +1 -1
  285. package/lib/mol-io/reader/cif/schema/ccd.js +1 -1
  286. package/lib/mol-io/reader/cif/schema/cif-core.d.ts +1 -1
  287. package/lib/mol-io/reader/cif/schema/cif-core.js +1 -1
  288. package/lib/mol-io/reader/cif/schema/mmcif.d.ts +3 -4
  289. package/lib/mol-io/reader/cif/schema/mmcif.js +2 -3
  290. package/lib/mol-io/reader/dx/parser.js +1 -1
  291. package/lib/mol-io/writer/ligand-encoder.d.ts +4 -2
  292. package/lib/mol-io/writer/ligand-encoder.js +9 -4
  293. package/lib/mol-io/writer/mol/encoder.js +16 -4
  294. package/lib/mol-io/writer/mol2/encoder.js +17 -4
  295. package/lib/mol-math/geometry/lookup3d/grid.d.ts +1 -1
  296. package/lib/mol-math/geometry/lookup3d/grid.js +3 -3
  297. package/lib/mol-model/structure/model/properties/seconday-structure.d.ts +4 -2
  298. package/lib/mol-model/structure/model/properties/seconday-structure.js +2 -1
  299. package/lib/mol-model/structure/model/types/ions.d.ts +2 -2
  300. package/lib/mol-model/structure/model/types/ions.js +2 -2
  301. package/lib/mol-model/structure/model/types/saccharides.js +1 -1
  302. package/lib/mol-model/structure/model/types.d.ts +1 -1
  303. package/lib/mol-model/structure/model/types.js +43 -41
  304. package/lib/mol-model-formats/shape/ply.d.ts +2 -2
  305. package/lib/mol-model-formats/structure/common/property.js +2 -0
  306. package/lib/mol-model-formats/structure/property/secondary-structure.d.ts +1 -1
  307. package/lib/mol-model-formats/structure/property/secondary-structure.js +2 -2
  308. package/lib/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts +1 -1
  309. package/lib/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts +1 -1
  310. package/lib/mol-model-props/computed/representations/interactions.d.ts +3 -3
  311. package/lib/mol-model-props/integrative/cross-link-restraint/representation.d.ts +4 -4
  312. package/lib/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts +3 -2
  313. package/lib/mol-plugin/commands.d.ts +1 -1
  314. package/lib/mol-plugin/util/viewport-screenshot.d.ts +3 -3
  315. package/lib/mol-plugin/version.js +2 -2
  316. package/lib/mol-plugin-state/helpers/root-structure.js +3 -1
  317. package/lib/mol-plugin-state/transforms/representation.d.ts +6 -6
  318. package/lib/mol-plugin-ui/base.d.ts +3 -1
  319. package/lib/mol-plugin-ui/controls/color.d.ts +1 -1
  320. package/lib/mol-plugin-ui/controls/common.d.ts +2 -0
  321. package/lib/mol-plugin-ui/hooks/use-behavior.d.ts +1 -1
  322. package/lib/mol-plugin-ui/hooks/use-behavior.js +20 -7
  323. package/lib/mol-plugin-ui/plugin.d.ts +2 -0
  324. package/lib/mol-plugin-ui/plugin.js +2 -2
  325. package/lib/mol-plugin-ui/skin/base/base.scss +32 -32
  326. package/lib/mol-plugin-ui/skin/base/components/controls-base.scss +333 -333
  327. package/lib/mol-plugin-ui/skin/base/components/controls.scss +418 -418
  328. package/lib/mol-plugin-ui/skin/base/components/help.scss +27 -27
  329. package/lib/mol-plugin-ui/skin/base/components/line-graph.scss +67 -67
  330. package/lib/mol-plugin-ui/skin/base/components/log.scss +100 -100
  331. package/lib/mol-plugin-ui/skin/base/components/misc.scss +643 -643
  332. package/lib/mol-plugin-ui/skin/base/components/sequence.scss +125 -125
  333. package/lib/mol-plugin-ui/skin/base/components/slider.scss +165 -165
  334. package/lib/mol-plugin-ui/skin/base/components/tasks.scss +99 -99
  335. package/lib/mol-plugin-ui/skin/base/components/toast.scss +83 -83
  336. package/lib/mol-plugin-ui/skin/base/components/transformer.scss +163 -163
  337. package/lib/mol-plugin-ui/skin/base/components/viewport.scss +128 -128
  338. package/lib/mol-plugin-ui/skin/base/layout/common.scss +71 -71
  339. package/lib/mol-plugin-ui/skin/base/layout/controls-landscape.scss +89 -89
  340. package/lib/mol-plugin-ui/skin/base/layout/controls-outside.scss +98 -98
  341. package/lib/mol-plugin-ui/skin/base/layout/controls-portrait.scss +108 -108
  342. package/lib/mol-plugin-ui/skin/base/layout.scss +40 -40
  343. package/lib/mol-plugin-ui/skin/base/logo.scss +12 -12
  344. package/lib/mol-plugin-ui/skin/base/normalize.scss +209 -209
  345. package/lib/mol-plugin-ui/skin/base/ui.scss +40 -40
  346. package/lib/mol-plugin-ui/skin/base/variables.scss +85 -85
  347. package/lib/mol-plugin-ui/skin/blue.scss +1 -1
  348. package/lib/mol-plugin-ui/skin/colors/blue.scss +23 -23
  349. package/lib/mol-plugin-ui/skin/colors/dark.scss +23 -23
  350. package/lib/mol-plugin-ui/skin/colors/light.scss +29 -29
  351. package/lib/mol-plugin-ui/skin/dark.scss +1 -1
  352. package/lib/mol-plugin-ui/skin/light.scss +1 -1
  353. package/lib/mol-plugin-ui/spec.d.ts +1 -0
  354. package/lib/mol-plugin-ui/state/common.js +7 -8
  355. package/lib/mol-plugin-ui/task.d.ts +2 -21
  356. package/lib/mol-plugin-ui/task.js +40 -46
  357. package/lib/mol-plugin-ui/viewport/help.d.ts +4 -1
  358. package/lib/mol-repr/shape/loci/angle.d.ts +1 -1
  359. package/lib/mol-repr/shape/loci/dihedral.d.ts +1 -1
  360. package/lib/mol-repr/shape/loci/orientation.d.ts +1 -1
  361. package/lib/mol-repr/shape/loci/plane.d.ts +1 -1
  362. package/lib/mol-repr/shape/model/unitcell.d.ts +1 -1
  363. package/lib/mol-repr/structure/complex-visual.d.ts +3 -3
  364. package/lib/mol-repr/structure/params.d.ts +4 -4
  365. package/lib/mol-repr/structure/registry.d.ts +10 -10
  366. package/lib/mol-repr/structure/representation/backbone.d.ts +3 -3
  367. package/lib/mol-repr/structure/representation/ball-and-stick.d.ts +3 -3
  368. package/lib/mol-repr/structure/representation/carbohydrate.d.ts +3 -3
  369. package/lib/mol-repr/structure/representation/cartoon.d.ts +3 -3
  370. package/lib/mol-repr/structure/representation/ellipsoid.d.ts +3 -3
  371. package/lib/mol-repr/structure/representation/gaussian-surface.d.ts +3 -3
  372. package/lib/mol-repr/structure/representation/molecular-surface.d.ts +3 -3
  373. package/lib/mol-repr/structure/representation/orientation.d.ts +3 -3
  374. package/lib/mol-repr/structure/representation/putty.d.ts +3 -3
  375. package/lib/mol-repr/structure/representation/spacefill.d.ts +3 -3
  376. package/lib/mol-repr/structure/units-visual.d.ts +4 -4
  377. package/lib/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts +2 -2
  378. package/lib/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts +2 -2
  379. package/lib/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts +1 -1
  380. package/lib/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts +1 -1
  381. package/lib/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts +1 -1
  382. package/lib/mol-repr/structure/visual/element-sphere.d.ts +2 -2
  383. package/lib/mol-repr/structure/visual/ellipsoid-mesh.d.ts +1 -1
  384. package/lib/mol-repr/structure/visual/gaussian-surface-mesh.d.ts +4 -4
  385. package/lib/mol-repr/structure/visual/molecular-surface-mesh.d.ts +1 -1
  386. package/lib/mol-repr/structure/visual/nucleotide-block-mesh.d.ts +1 -1
  387. package/lib/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts +1 -1
  388. package/lib/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts +1 -1
  389. package/lib/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts +2 -2
  390. package/lib/mol-repr/structure/visual/polymer-backbone-sphere.d.ts +2 -2
  391. package/lib/mol-repr/structure/visual/polymer-direction-wedge.d.ts +1 -1
  392. package/lib/mol-repr/structure/visual/polymer-gap-cylinder.d.ts +1 -1
  393. package/lib/mol-repr/structure/visual/polymer-trace-mesh.d.ts +1 -1
  394. package/lib/mol-repr/structure/visual/polymer-tube-mesh.d.ts +1 -1
  395. package/lib/mol-repr/util.d.ts +1 -1
  396. package/lib/mol-repr/util.js +1 -1
  397. package/lib/mol-repr/volume/isosurface.d.ts +5 -5
  398. package/lib/mol-repr/volume/registry.d.ts +1 -1
  399. package/lib/mol-repr/volume/slice.js +1 -1
  400. package/lib/mol-script/language/builder.d.ts +0 -1
  401. package/lib/mol-theme/color/volume-value.d.ts +3 -2
  402. package/lib/mol-theme/color/volume-value.js +2 -4
  403. package/lib/mol-theme/color.d.ts +55 -39
  404. package/lib/mol-theme/color.js +1 -1
  405. package/lib/mol-theme/theme.d.ts +8 -7
  406. package/lib/mol-theme/theme.js +1 -1
  407. package/lib/servers/model/server/query.js +1 -3
  408. package/lib/servers/model/version.d.ts +1 -1
  409. package/lib/servers/model/version.js +1 -1
  410. package/package.json +162 -162
package/lib/commonjs/mol-repr/structure/representation/spacefill.d.ts CHANGED
@@ -20,7 +20,7 @@ export declare const SpacefillParams: {
20
20
  doubleSided: PD.BooleanParam;
21
21
  ignoreLight: PD.BooleanParam;
22
22
  xrayShaded: PD.BooleanParam;
23
- allowTransparentBackfaces: PD.BooleanParam;
23
+ transparentBackfaces: PD.Select<string>;
24
24
  bumpAmplitude: PD.Numeric;
25
25
  alpha: PD.Numeric;
26
26
  quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
@@ -55,7 +55,7 @@ export declare function getSpacefillParams(ctx: ThemeRegistryContext, structure:
55
55
  doubleSided: PD.BooleanParam;
56
56
  ignoreLight: PD.BooleanParam;
57
57
  xrayShaded: PD.BooleanParam;
58
- allowTransparentBackfaces: PD.BooleanParam;
58
+ transparentBackfaces: PD.Select<string>;
59
59
  bumpAmplitude: PD.Numeric;
60
60
  alpha: PD.Numeric;
61
61
  quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
@@ -91,7 +91,7 @@ export declare const SpacefillRepresentationProvider: StructureRepresentationPro
91
91
  doubleSided: PD.BooleanParam;
92
92
  ignoreLight: PD.BooleanParam;
93
93
  xrayShaded: PD.BooleanParam;
94
- allowTransparentBackfaces: PD.BooleanParam;
94
+ transparentBackfaces: PD.Select<string>;
95
95
  bumpAmplitude: PD.Numeric;
96
96
  alpha: PD.Numeric;
97
97
  quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
package/lib/commonjs/mol-repr/structure/units-visual.d.ts CHANGED
@@ -51,7 +51,7 @@ export declare const UnitsMeshParams: {
51
51
  flatShaded: PD.BooleanParam;
52
52
  ignoreLight: PD.BooleanParam;
53
53
  xrayShaded: PD.BooleanParam;
54
- allowTransparentBackfaces: PD.BooleanParam;
54
+ transparentBackfaces: PD.Select<string>;
55
55
  bumpFrequency: PD.Numeric;
56
56
  bumpAmplitude: PD.Numeric;
57
57
  alpha: PD.Numeric;
@@ -83,7 +83,7 @@ export declare const UnitsSpheresParams: {
83
83
  doubleSided: PD.BooleanParam;
84
84
  ignoreLight: PD.BooleanParam;
85
85
  xrayShaded: PD.BooleanParam;
86
- allowTransparentBackfaces: PD.BooleanParam;
86
+ transparentBackfaces: PD.Select<string>;
87
87
  bumpFrequency: PD.Numeric;
88
88
  bumpAmplitude: PD.Numeric;
89
89
  alpha: PD.Numeric;
@@ -116,7 +116,7 @@ export declare const UnitsCylindersParams: {
116
116
  doubleSided: PD.BooleanParam;
117
117
  ignoreLight: PD.BooleanParam;
118
118
  xrayShaded: PD.BooleanParam;
119
- allowTransparentBackfaces: PD.BooleanParam;
119
+ transparentBackfaces: PD.Select<string>;
120
120
  bumpFrequency: PD.Numeric;
121
121
  bumpAmplitude: PD.Numeric;
122
122
  alpha: PD.Numeric;
@@ -278,7 +278,7 @@ export declare const UnitsTextureMeshParams: {
278
278
  flatShaded: PD.BooleanParam;
279
279
  ignoreLight: PD.BooleanParam;
280
280
  xrayShaded: PD.BooleanParam;
281
- allowTransparentBackfaces: PD.BooleanParam;
281
+ transparentBackfaces: PD.Select<string>;
282
282
  bumpFrequency: PD.Numeric;
283
283
  bumpAmplitude: PD.Numeric;
284
284
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/bond-inter-unit-cylinder.d.ts CHANGED
@@ -33,7 +33,7 @@ export declare const InterUnitBondCylinderParams: {
33
33
  doubleSided: PD.BooleanParam;
34
34
  ignoreLight: PD.BooleanParam;
35
35
  xrayShaded: PD.BooleanParam;
36
- allowTransparentBackfaces: PD.BooleanParam;
36
+ transparentBackfaces: PD.Select<string>;
37
37
  bumpFrequency: PD.Numeric;
38
38
  bumpAmplitude: PD.Numeric;
39
39
  alpha: PD.Numeric;
@@ -83,7 +83,7 @@ export declare function InterUnitBondCylinderVisual(materialId: number, structur
83
83
  doubleSided: PD.BooleanParam;
84
84
  ignoreLight: PD.BooleanParam;
85
85
  xrayShaded: PD.BooleanParam;
86
- allowTransparentBackfaces: PD.BooleanParam;
86
+ transparentBackfaces: PD.Select<string>;
87
87
  bumpFrequency: PD.Numeric;
88
88
  bumpAmplitude: PD.Numeric;
89
89
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/bond-intra-unit-cylinder.d.ts CHANGED
@@ -34,7 +34,7 @@ export declare const IntraUnitBondCylinderParams: {
34
34
  doubleSided: PD.BooleanParam;
35
35
  ignoreLight: PD.BooleanParam;
36
36
  xrayShaded: PD.BooleanParam;
37
- allowTransparentBackfaces: PD.BooleanParam;
37
+ transparentBackfaces: PD.Select<string>;
38
38
  bumpFrequency: PD.Numeric;
39
39
  bumpAmplitude: PD.Numeric;
40
40
  alpha: PD.Numeric;
@@ -84,7 +84,7 @@ export declare function IntraUnitBondCylinderVisual(materialId: number, structur
84
84
  doubleSided: PD.BooleanParam;
85
85
  ignoreLight: PD.BooleanParam;
86
86
  xrayShaded: PD.BooleanParam;
87
- allowTransparentBackfaces: PD.BooleanParam;
87
+ transparentBackfaces: PD.Select<string>;
88
88
  bumpFrequency: PD.Numeric;
89
89
  bumpAmplitude: PD.Numeric;
90
90
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/carbohydrate-link-cylinder.d.ts CHANGED
@@ -25,7 +25,7 @@ export declare const CarbohydrateLinkParams: {
25
25
  flatShaded: PD.BooleanParam;
26
26
  ignoreLight: PD.BooleanParam;
27
27
  xrayShaded: PD.BooleanParam;
28
- allowTransparentBackfaces: PD.BooleanParam;
28
+ transparentBackfaces: PD.Select<string>;
29
29
  bumpFrequency: PD.Numeric;
30
30
  bumpAmplitude: PD.Numeric;
31
31
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/carbohydrate-symbol-mesh.d.ts CHANGED
@@ -15,7 +15,7 @@ export declare const CarbohydrateSymbolParams: {
15
15
  flatShaded: PD.BooleanParam;
16
16
  ignoreLight: PD.BooleanParam;
17
17
  xrayShaded: PD.BooleanParam;
18
- allowTransparentBackfaces: PD.BooleanParam;
18
+ transparentBackfaces: PD.Select<string>;
19
19
  bumpFrequency: PD.Numeric;
20
20
  bumpAmplitude: PD.Numeric;
21
21
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/carbohydrate-terminal-link-cylinder.d.ts CHANGED
@@ -25,7 +25,7 @@ export declare const CarbohydrateTerminalLinkParams: {
25
25
  flatShaded: PD.BooleanParam;
26
26
  ignoreLight: PD.BooleanParam;
27
27
  xrayShaded: PD.BooleanParam;
28
- allowTransparentBackfaces: PD.BooleanParam;
28
+ transparentBackfaces: PD.Select<string>;
29
29
  bumpFrequency: PD.Numeric;
30
30
  bumpAmplitude: PD.Numeric;
31
31
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/element-sphere.d.ts CHANGED
@@ -19,7 +19,7 @@ export declare const ElementSphereParams: {
19
19
  doubleSided: PD.BooleanParam;
20
20
  ignoreLight: PD.BooleanParam;
21
21
  xrayShaded: PD.BooleanParam;
22
- allowTransparentBackfaces: PD.BooleanParam;
22
+ transparentBackfaces: PD.Select<string>;
23
23
  bumpFrequency: PD.Numeric;
24
24
  bumpAmplitude: PD.Numeric;
25
25
  alpha: PD.Numeric;
@@ -54,7 +54,7 @@ export declare function ElementSphereVisual(materialId: number, structure: Struc
54
54
  doubleSided: PD.BooleanParam;
55
55
  ignoreLight: PD.BooleanParam;
56
56
  xrayShaded: PD.BooleanParam;
57
- allowTransparentBackfaces: PD.BooleanParam;
57
+ transparentBackfaces: PD.Select<string>;
58
58
  bumpFrequency: PD.Numeric;
59
59
  bumpAmplitude: PD.Numeric;
60
60
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/ellipsoid-mesh.d.ts CHANGED
@@ -20,7 +20,7 @@ export declare const EllipsoidMeshParams: {
20
20
  flatShaded: PD.BooleanParam;
21
21
  ignoreLight: PD.BooleanParam;
22
22
  xrayShaded: PD.BooleanParam;
23
- allowTransparentBackfaces: PD.BooleanParam;
23
+ transparentBackfaces: PD.Select<string>;
24
24
  bumpFrequency: PD.Numeric;
25
25
  bumpAmplitude: PD.Numeric;
26
26
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/gaussian-surface-mesh.d.ts CHANGED
@@ -26,7 +26,7 @@ export declare const GaussianSurfaceMeshParams: {
26
26
  flatShaded: PD.BooleanParam;
27
27
  ignoreLight: PD.BooleanParam;
28
28
  xrayShaded: PD.BooleanParam;
29
- allowTransparentBackfaces: PD.BooleanParam;
29
+ transparentBackfaces: PD.Select<string>;
30
30
  bumpFrequency: PD.Numeric;
31
31
  bumpAmplitude: PD.Numeric;
32
32
  alpha: PD.Numeric;
@@ -66,7 +66,7 @@ export declare const StructureGaussianSurfaceMeshParams: {
66
66
  flatShaded: PD.BooleanParam;
67
67
  ignoreLight: PD.BooleanParam;
68
68
  xrayShaded: PD.BooleanParam;
69
- allowTransparentBackfaces: PD.BooleanParam;
69
+ transparentBackfaces: PD.Select<string>;
70
70
  bumpFrequency: PD.Numeric;
71
71
  bumpAmplitude: PD.Numeric;
72
72
  alpha: PD.Numeric;
@@ -106,7 +106,7 @@ export declare function GaussianSurfaceVisual(materialId: number, structure: Str
106
106
  flatShaded: PD.BooleanParam;
107
107
  ignoreLight: PD.BooleanParam;
108
108
  xrayShaded: PD.BooleanParam;
109
- allowTransparentBackfaces: PD.BooleanParam;
109
+ transparentBackfaces: PD.Select<string>;
110
110
  bumpFrequency: PD.Numeric;
111
111
  bumpAmplitude: PD.Numeric;
112
112
  alpha: PD.Numeric;
@@ -145,7 +145,7 @@ export declare function StructureGaussianSurfaceVisual(materialId: number, struc
145
145
  flatShaded: PD.BooleanParam;
146
146
  ignoreLight: PD.BooleanParam;
147
147
  xrayShaded: PD.BooleanParam;
148
- allowTransparentBackfaces: PD.BooleanParam;
148
+ transparentBackfaces: PD.Select<string>;
149
149
  bumpFrequency: PD.Numeric;
150
150
  bumpAmplitude: PD.Numeric;
151
151
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/molecular-surface-mesh.d.ts CHANGED
@@ -22,7 +22,7 @@ export declare const MolecularSurfaceMeshParams: {
22
22
  flatShaded: PD.BooleanParam;
23
23
  ignoreLight: PD.BooleanParam;
24
24
  xrayShaded: PD.BooleanParam;
25
- allowTransparentBackfaces: PD.BooleanParam;
25
+ transparentBackfaces: PD.Select<string>;
26
26
  bumpFrequency: PD.Numeric;
27
27
  bumpAmplitude: PD.Numeric;
28
28
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/nucleotide-block-mesh.d.ts CHANGED
@@ -24,7 +24,7 @@ export declare const NucleotideBlockParams: {
24
24
  flatShaded: PD.BooleanParam;
25
25
  ignoreLight: PD.BooleanParam;
26
26
  xrayShaded: PD.BooleanParam;
27
- allowTransparentBackfaces: PD.BooleanParam;
27
+ transparentBackfaces: PD.Select<string>;
28
28
  bumpFrequency: PD.Numeric;
29
29
  bumpAmplitude: PD.Numeric;
30
30
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/nucleotide-ring-mesh.d.ts CHANGED
@@ -27,7 +27,7 @@ export declare const NucleotideRingParams: {
27
27
  flatShaded: PD.BooleanParam;
28
28
  ignoreLight: PD.BooleanParam;
29
29
  xrayShaded: PD.BooleanParam;
30
- allowTransparentBackfaces: PD.BooleanParam;
30
+ transparentBackfaces: PD.Select<string>;
31
31
  bumpFrequency: PD.Numeric;
32
32
  bumpAmplitude: PD.Numeric;
33
33
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/orientation-ellipsoid-mesh.d.ts CHANGED
@@ -19,7 +19,7 @@ export declare const OrientationEllipsoidMeshParams: {
19
19
  flatShaded: PD.BooleanParam;
20
20
  ignoreLight: PD.BooleanParam;
21
21
  xrayShaded: PD.BooleanParam;
22
- allowTransparentBackfaces: PD.BooleanParam;
22
+ transparentBackfaces: PD.Select<string>;
23
23
  bumpFrequency: PD.Numeric;
24
24
  bumpAmplitude: PD.Numeric;
25
25
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/polymer-backbone-cylinder.d.ts CHANGED
@@ -17,7 +17,7 @@ export declare const PolymerBackboneCylinderParams: {
17
17
  doubleSided: PD.BooleanParam;
18
18
  ignoreLight: PD.BooleanParam;
19
19
  xrayShaded: PD.BooleanParam;
20
- allowTransparentBackfaces: PD.BooleanParam;
20
+ transparentBackfaces: PD.Select<string>;
21
21
  bumpFrequency: PD.Numeric;
22
22
  bumpAmplitude: PD.Numeric;
23
23
  alpha: PD.Numeric;
@@ -51,7 +51,7 @@ export declare function PolymerBackboneCylinderVisual(materialId: number, struct
51
51
  doubleSided: PD.BooleanParam;
52
52
  ignoreLight: PD.BooleanParam;
53
53
  xrayShaded: PD.BooleanParam;
54
- allowTransparentBackfaces: PD.BooleanParam;
54
+ transparentBackfaces: PD.Select<string>;
55
55
  bumpFrequency: PD.Numeric;
56
56
  bumpAmplitude: PD.Numeric;
57
57
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/polymer-backbone-sphere.d.ts CHANGED
@@ -16,7 +16,7 @@ export declare const PolymerBackboneSphereParams: {
16
16
  doubleSided: PD.BooleanParam;
17
17
  ignoreLight: PD.BooleanParam;
18
18
  xrayShaded: PD.BooleanParam;
19
- allowTransparentBackfaces: PD.BooleanParam;
19
+ transparentBackfaces: PD.Select<string>;
20
20
  bumpFrequency: PD.Numeric;
21
21
  bumpAmplitude: PD.Numeric;
22
22
  alpha: PD.Numeric;
@@ -49,7 +49,7 @@ export declare function PolymerBackboneSphereVisual(materialId: number, structur
49
49
  doubleSided: PD.BooleanParam;
50
50
  ignoreLight: PD.BooleanParam;
51
51
  xrayShaded: PD.BooleanParam;
52
- allowTransparentBackfaces: PD.BooleanParam;
52
+ transparentBackfaces: PD.Select<string>;
53
53
  bumpFrequency: PD.Numeric;
54
54
  bumpAmplitude: PD.Numeric;
55
55
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/polymer-direction-wedge.d.ts CHANGED
@@ -21,7 +21,7 @@ export declare const PolymerDirectionParams: {
21
21
  flatShaded: PD.BooleanParam;
22
22
  ignoreLight: PD.BooleanParam;
23
23
  xrayShaded: PD.BooleanParam;
24
- allowTransparentBackfaces: PD.BooleanParam;
24
+ transparentBackfaces: PD.Select<string>;
25
25
  bumpFrequency: PD.Numeric;
26
26
  bumpAmplitude: PD.Numeric;
27
27
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/polymer-gap-cylinder.d.ts CHANGED
@@ -24,7 +24,7 @@ export declare const PolymerGapParams: {
24
24
  flatShaded: PD.BooleanParam;
25
25
  ignoreLight: PD.BooleanParam;
26
26
  xrayShaded: PD.BooleanParam;
27
- allowTransparentBackfaces: PD.BooleanParam;
27
+ transparentBackfaces: PD.Select<string>;
28
28
  bumpFrequency: PD.Numeric;
29
29
  bumpAmplitude: PD.Numeric;
30
30
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/polymer-trace-mesh.d.ts CHANGED
@@ -42,7 +42,7 @@ export declare const PolymerTraceParams: {
42
42
  flatShaded: PD.BooleanParam;
43
43
  ignoreLight: PD.BooleanParam;
44
44
  xrayShaded: PD.BooleanParam;
45
- allowTransparentBackfaces: PD.BooleanParam;
45
+ transparentBackfaces: PD.Select<string>;
46
46
  bumpFrequency: PD.Numeric;
47
47
  bumpAmplitude: PD.Numeric;
48
48
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/structure/visual/polymer-tube-mesh.d.ts CHANGED
@@ -30,7 +30,7 @@ export declare const PolymerTubeParams: {
30
30
  flatShaded: PD.BooleanParam;
31
31
  ignoreLight: PD.BooleanParam;
32
32
  xrayShaded: PD.BooleanParam;
33
- allowTransparentBackfaces: PD.BooleanParam;
33
+ transparentBackfaces: PD.Select<string>;
34
34
  bumpFrequency: PD.Numeric;
35
35
  bumpAmplitude: PD.Numeric;
36
36
  alpha: PD.Numeric;
package/lib/commonjs/mol-repr/util.d.ts CHANGED
@@ -31,7 +31,7 @@ export interface QualityProps {
31
31
  doubleSided: boolean;
32
32
  xrayShaded: boolean;
33
33
  alpha: number;
34
- allowTransparentBackfaces: boolean;
34
+ transparentBackfaces: 'off' | 'on' | 'opaque';
35
35
  }
36
36
  export declare const DefaultQualityThresholds: {
37
37
  lowestElementCount: number;
package/lib/commonjs/mol-repr/util.js CHANGED
@@ -169,7 +169,7 @@ function getQualityProps(props, data) {
169
169
  // max resolution based on volume (for 'auto' quality)
170
170
  resolution = Math.max(resolution, volume / 500000000);
171
171
  resolution = Math.min(resolution, 20);
172
- if (!props.allowTransparentBackfaces && ((props.alpha !== undefined && props.alpha < 1) || !!props.xrayShaded)) {
172
+ if (props.transparentBackfaces === 'off' && ((props.alpha !== undefined && props.alpha < 1) || !!props.xrayShaded)) {
173
173
  doubleSided = false;
174
174
  }
175
175
  return {
package/lib/commonjs/mol-repr/volume/isosurface.d.ts CHANGED
@@ -93,7 +93,7 @@ export declare function IsosurfaceVisual(materialId: number, volume: Volume, pro
93
93
  flatShaded: PD.BooleanParam;
94
94
  ignoreLight: PD.BooleanParam;
95
95
  xrayShaded: PD.BooleanParam;
96
- allowTransparentBackfaces: PD.BooleanParam;
96
+ transparentBackfaces: PD.Select<string>;
97
97
  bumpFrequency: PD.Numeric;
98
98
  bumpAmplitude: PD.Numeric;
99
99
  alpha: PD.Numeric;
@@ -167,7 +167,7 @@ export declare const IsosurfaceMeshParams: {
167
167
  flatShaded: PD.BooleanParam;
168
168
  ignoreLight: PD.BooleanParam;
169
169
  xrayShaded: PD.BooleanParam;
170
- allowTransparentBackfaces: PD.BooleanParam;
170
+ transparentBackfaces: PD.Select<string>;
171
171
  bumpFrequency: PD.Numeric;
172
172
  bumpAmplitude: PD.Numeric;
173
173
  alpha: PD.Numeric;
@@ -330,7 +330,7 @@ export declare const IsosurfaceParams: {
330
330
  flatShaded: PD.BooleanParam;
331
331
  ignoreLight: PD.BooleanParam;
332
332
  xrayShaded: PD.BooleanParam;
333
- allowTransparentBackfaces: PD.BooleanParam;
333
+ transparentBackfaces: PD.Select<string>;
334
334
  bumpAmplitude: PD.Numeric;
335
335
  };
336
336
  export declare type IsosurfaceParams = typeof IsosurfaceParams;
@@ -406,7 +406,7 @@ export declare function getIsosurfaceParams(ctx: ThemeRegistryContext, volume: V
406
406
  flatShaded: PD.BooleanParam;
407
407
  ignoreLight: PD.BooleanParam;
408
408
  xrayShaded: PD.BooleanParam;
409
- allowTransparentBackfaces: PD.BooleanParam;
409
+ transparentBackfaces: PD.Select<string>;
410
410
  bumpAmplitude: PD.Numeric;
411
411
  };
412
412
  export declare type IsosurfaceRepresentation = VolumeRepresentation<IsosurfaceParams>;
@@ -483,6 +483,6 @@ export declare const IsosurfaceRepresentationProvider: VolumeRepresentationProvi
483
483
  flatShaded: PD.BooleanParam;
484
484
  ignoreLight: PD.BooleanParam;
485
485
  xrayShaded: PD.BooleanParam;
486
- allowTransparentBackfaces: PD.BooleanParam;
486
+ transparentBackfaces: PD.Select<string>;
487
487
  bumpAmplitude: PD.Numeric;
488
488
  }, "isosurface">;
package/lib/commonjs/mol-repr/volume/registry.d.ts CHANGED
@@ -82,7 +82,7 @@ export declare namespace VolumeRepresentationRegistry {
82
82
  flatShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
83
83
  ignoreLight: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
84
84
  xrayShaded: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
85
- allowTransparentBackfaces: import("../../mol-util/param-definition").ParamDefinition.BooleanParam;
85
+ transparentBackfaces: import("../../mol-util/param-definition").ParamDefinition.Select<string>;
86
86
  bumpAmplitude: import("../../mol-util/param-definition").ParamDefinition.Numeric;
87
87
  }, "isosurface">;
88
88
  slice: import("./representation").VolumeRepresentationProvider<{
package/lib/commonjs/mol-repr/volume/slice.js CHANGED
@@ -28,7 +28,7 @@ function createImage(ctx, volume, theme, props, image) {
28
28
  _a = volume.grid.cells, space = _a.space, data = _a.data;
29
29
  _b = volume.grid.stats, min = _b.min, max = _b.max;
30
30
  isoVal = volume_1.Volume.IsoValue.toAbsolute(isoValue, volume.grid.stats).absoluteValue;
31
- color = theme.color.color(location_1.NullLocation, false);
31
+ color = 'color' in theme.color ? theme.color.color(location_1.NullLocation, false) : (0, color_1.Color)(0xffffff);
32
32
  _c = color_1.Color.toRgbNormalized(color), r = _c[0], g = _c[1], b = _c[2];
33
33
  _d = getSliceInfo(volume.grid, props), width = _d.width, height = _d.height, x = _d.x, y = _d.y, z = _d.z, x0 = _d.x0, y0 = _d.y0, z0 = _d.z0, nx = _d.nx, ny = _d.ny, nz = _d.nz;
34
34
  corners = new Float32Array(dim === 'x' ? [x, 0, 0, x, y, 0, x, 0, z, x, y, z] :
package/lib/commonjs/mol-script/language/builder.d.ts CHANGED
@@ -10,7 +10,6 @@ export declare namespace MolScriptBuilder {
10
10
  '@header': string;
11
11
  type: {
12
12
  '@header': string;
13
- /** atom macromolecular property set */
14
13
  bool: MSymbol<import("./symbol").Arguments<import("./symbol").Arguments.PropTypes<{
15
14
  0: import("./symbol").Argument<import("./type").Type.AnyValue>;
16
15
  }>>, import("./type").Type.OneOf<boolean>>;
package/lib/commonjs/mol-theme/color/volume-value.d.ts CHANGED
@@ -1,11 +1,12 @@
1
1
  /**
2
- * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
2
+ * Copyright (c) 2021-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
3
  *
4
4
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
5
5
  */
6
6
  import { ColorTheme } from '../color';
7
7
  import { ParamDefinition as PD } from '../../mol-util/param-definition';
8
8
  import { ThemeDataContext } from '../theme';
9
+ import { ColorTypeDirect } from '../../mol-geo/geometry/color-data';
9
10
  export declare const VolumeValueColorThemeParams: {
10
11
  colorList: PD.ColorList;
11
12
  };
@@ -13,5 +14,5 @@ export declare type VolumeValueColorThemeParams = typeof VolumeValueColorThemePa
13
14
  export declare function getVolumeValueColorThemeParams(ctx: ThemeDataContext): {
14
15
  colorList: PD.ColorList;
15
16
  };
16
- export declare function VolumeValueColorTheme(ctx: ThemeDataContext, props: PD.Values<VolumeValueColorThemeParams>): ColorTheme<VolumeValueColorThemeParams>;
17
+ export declare function VolumeValueColorTheme(ctx: ThemeDataContext, props: PD.Values<VolumeValueColorThemeParams>): ColorTheme<VolumeValueColorThemeParams, ColorTypeDirect>;
17
18
  export declare const VolumeValueColorThemeProvider: ColorTheme.Provider<VolumeValueColorThemeParams, 'volume-value'>;
package/lib/commonjs/mol-theme/color/volume-value.js CHANGED
@@ -1,6 +1,6 @@
1
1
  "use strict";
2
2
  /**
3
- * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
3
+ * Copyright (c) 2021-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
4
4
  *
5
5
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
6
6
  */
@@ -9,7 +9,6 @@ exports.VolumeValueColorThemeProvider = exports.VolumeValueColorTheme = exports.
9
9
  var color_1 = require("../../mol-util/color");
10
10
  var param_definition_1 = require("../../mol-util/param-definition");
11
11
  var names_1 = require("../../mol-util/color/names");
12
- var DefaultColor = (0, color_1.Color)(0xCCCCCC);
13
12
  var Description = 'Assign color based on the given value of a volume cell.';
14
13
  exports.VolumeValueColorThemeParams = {
15
14
  colorList: param_definition_1.ParamDefinition.ColorList({
@@ -37,7 +36,6 @@ function VolumeValueColorTheme(ctx, props) {
37
36
  return {
38
37
  factory: VolumeValueColorTheme,
39
38
  granularity: 'direct',
40
- color: function () { return DefaultColor; },
41
39
  props: props,
42
40
  description: Description,
43
41
  legend: scale.legend,